CERC Genomic Medicine

CERC Genomic Medicine's repositories

scripts

Various scripts

Language:Python4 3 1

skills_test_2

4 40

vep_pipeline

Pipeline for variant annotation using Variant Effect Predictor (VEP)

Language:Jupyter Notebook4 40

HGDP_1KG_ancestry_inference

Language:Python3 20

skills_test_3

300

WEGS_pipelines

Pipelines for SNVs and InDels calling (single sample and joint) in WEGS, WGS, and WES using GATK.

Language:NextflowMIT3 20

glimpse_pipeline

Pipeline for variant imputation in low depth sequencing data using GLIMPSE

Language:NextflowMIT2 3 1

BQC19_Imputation_Panel

Language:Nextflow1 20

Regenie_nextflow

Pipeline implementation of Regenie

Language:Nextflow1 2 1

SV_calling_pipeline

Language:NextflowGPL-3.0100

AccessibilityMask

Language:Python020

beagle_phasing

Nextflow pipeline around Beagle phasing/imputation tool

Language:Nextflow020

CARTaGENE_Imputation_Panel

Language:Nextflow000

CARTaGENE_PheWeb

A tool to build a website to browse hundreds or thousands of GWAS.

Language:PythonMIT000

ExomePLUS_benchmark

Language:R000

RFMix2_local_ancesty

Language:Nextflow020

shapeit4_pipeline

Pipeline for genotype phasing using SHAPEIT4

Language:NextflowMIT030

skills_test_1

040

verifybam_pipeline

Language:PythonMIT020

WEGS_paper

This repository contains source code for the tables and figures presented in the WEGS paper.

Language:Jupyter NotebookMIT000

bravo_api

Server side data processing and retrieval endpoints for BRAVO

MIT000

bravo_data_prep

Work flows and tools to create data that backs the BRAVO API.

Language:C++MIT000

CARTaGENE_flagship_paper

Language:NextflowGPL-3.0000

Phenotype_Filtering_Tool

Language:Python000

ProgrammingClub

MIT000